RnoINT0000025 @ rn6
Intron Retention
Gene
ENSRNOG00000020272 | 5330417C22Rik
Description
RIKEN cDNA 5330417C22 gene [Source:MGI Symbol;Acc:MGI:1923930]
Coordinates
chr2:211248578-211250550:-
Coord C1 exon
chr2:211250449-211250550
Coord A exon
chr2:211248705-211250448
Coord C2 exon
chr2:211248578-211248704
Length
1744 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACC
5' ss Score
6.54
3' ss Seq
TCTCCTTTCTACTTTGCTAGCAT
3' ss Score
6.37
Exon sequences
Seq C1 exon
ATCCAATGATGTGACTCAGTCCTGCAGCTCTGGAAGATCAACCACCATTCGTCTCAGATGCAACCCCATGAAACCTACACCTGGTACCCTTCGGCTACCCAG
Seq A exon
GTGACCTCTGTGGAGGGAGGCTGCACTGGCCACAGCCTGCTCTTGCCAGGACTCCCTCCATCCCAAGACACAGATACTATTTTTAAAAAGAAAAAAATCATTTTAGATCCATTCATGGGCTCTTGGGGGCACATGGCCCCTAGATCTTAACTTGAAGTAAAAAACTAAGCAGGGTGTGGTGGGGCATGGCTTTAATCCCAGCATTTGGTGGGCAGAGAAGAAGGATCTCTGAGGTGGAGGCCAGCTTAGTCTGCATATCAGGTTTAGGCCACTAGGATGACATAGCGACCTCTTGTCTCAAAAGTGGGGAGGGACAGGATATTTGCTCTGTCACTAATGAGGAAGTAGAACAAAAGTCTCCTGACCGTGGTAAATAATCACGCACAGCAAAGCAAAGCACAGGAGTGCTCGCCTGTAACCCTGTACTCAGAAGATACAGACTGAAGTTTTGCATATTCCCGGGGCCATTATATACTGGGCAGGGAGAAATATGAAGGACCTGTCAGAGAGTTCCCTTCCCTGAAGGAGGTCCCAGCATGTGTTTGCTTTGCTTCTTTTGTTTTTTAAGTTAGACTAGAACATTGCTACCTTGACTAGCTTTCCCTGGTCCTCACCTCTCCATGTAAAGACCAGAGTTTGTGCCCCAGTTGAGGTTGATCTCAGCTACATAATGAATTCAATGTCAGCCTGGACTAAAGGAGACACTATCTTAAAAAACAAAACAGAACAGAACACACACGCATGCACATGCACACGCACACGTGCGCGCACACACACCTGCATTGGAATGCACACAGACAGACAGACAGACAGACAGACACACACGCACATGCACACGCACACGTGCGCGCACACACACCTGCATTGGAATGCACACAGACAGACAGACAGACAGACAGACAGACAGACACACACACACACACACACACACACACACACACACAGAGTTATATATATAGCAAAAGCCAGGGCTGAGGAAATAGCTTAGTACTGAAAGTGTTCAGTGCACAAGCATGAAGACTTGAGTTTGCTCCTTAGCACCTAAGTCCCATGCCAAGCATGGTGTCACACGTGGAATCCCAGTGTTGGACAGCTGGAGACAGTGGATCTGTGGAGCTCACTGGACAAGCCAACCCAGCCTAATCAGCATGTCCCAGGTCCTCCCAAAACAAAGTGGACATCTCCTGAGGAGCAGGACCCAAGCTCAGGCATAGCACATAGCTACACCTGAACACCATCTCAACTACAACCCCACAACCAGGCAGCCGTATAAAAATAGCCATTGTCAGATGTGGCACGTCCGTGAGAGAACAGGAGCCTCCTAGGGGTTCTGGAACCCAGACATCTTAGATAGAGCTCTCCTTTGACATCAGCAGAAACAGGCAGACATATGGGAGACTAAACTGTCAGATGGCCATGGTGACTCATCCATACATTACCAGCACTTGGGAGGCCAGGACATGGCATTACTGAGTGTAAGGCCTGTCTAGGTTACAGAATGAGACTTTGTCTCAGAAAAAAAAGGGAGGAGTTTAGGAAGGAAGAAGGAAGGAAGGAAAGAAGGGAAGGAAGATGGAAGGAAGAAAGGAAGGAAGGGAGGAAGGGAGGGAGGGGGGAAGGAAGGGAGGAAGGGGGTGAGGGAACACCTGAGTTAAGGGCAGGTTGAGGGAGGTAGAAGATGAATCAGACAAGAAGTGTCACAGGCATCCGATGTGACAACTTGGTCTCCTTTCTACTTTGCTAG
Seq C2 exon
CATGTGCTCTGATGGGACCTGTGATGGCTGTAACTTCCACTTCCTGTGGGAGAGTGTGGCTGCTTGTCCACTCTGCTCGGCCTCTGACTACCACACTTTTGTCAGCAGCTGTGTGGCTGGGATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020272:ENSRNOT00000027493:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGTGACTCAGTCCTGCAGC
R:
CTGGATCCCAGCCACACAG
Band lengths:
222-1966
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]